﻿<?xml version="1.0" encoding="utf-8" ?>
<AutomationTest>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequence>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <Stage1ExpectedSequence1>GGGA---AAAATCAGATT</Stage1ExpectedSequence1>
    <Stage1ExpectedSequence2>GGGAATCAAAATCAG---</Stage1ExpectedSequence2>
    <Stage1ExpectedSequence3>GGGAATCAAAATCAG---</Stage1ExpectedSequence3>
    <Stage1ExpectedSequence4>GGGA-----AATC-G---</Stage1ExpectedSequence4>
    <Stage1ExpectedSequence5>GGGAATCAA--TCAG---</Stage1ExpectedSequence5>
    <Stage1ExpectedSequence6>GGGA--CAAAATCAG---</Stage1ExpectedSequence6>
    <Stage1ExpectedSequence7>GGGAATCTTA-TCAG---</Stage1ExpectedSequence7>
    <Stage1ExpectedScore>1.830688</Stage1ExpectedScore>
    <Stage2ExpectedSequence1>GGGAAAAATCAGATT</Stage2ExpectedSequence1>
    <Stage2ExpectedSequence2>GGGAATCAAAATCAG</Stage2ExpectedSequence2>
    <Stage2ExpectedSequence3>GGGAATCAAAATCAG</Stage2ExpectedSequence3>
    <Stage2ExpectedSequence4>GGGAA-----ATC-G</Stage2ExpectedSequence4>
    <Stage2ExpectedSequence5>GGGAATCA--ATCAG</Stage2ExpectedSequence5>
    <Stage2ExpectedSequence6>GGGA--CAAAATCAG</Stage2ExpectedSequence6>
    <Stage2ExpectedSequence7>GGGAATCTT-ATCAG</Stage2ExpectedSequence7>
    <Stage2ExpectedScore>27.76191</Stage2ExpectedScore>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCTTA-TCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGACTATTA-TCAG---</ExpectedSequence8>
    <ExpectedSequence9>GGG-----AAATC-G---</ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.830688</ExpectedScore>
  </MultipleNWProfilerDnaSequence>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeightedMafft>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATCG----</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCTTA-TCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGAATCAAAATCAG---</ExpectedSequence8>
    <ExpectedSequence9>GGG-----AAATC-G---</ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.687831</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithWeightedMafft>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeights>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>GGGAAATCG------</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAATCAG--</ExpectedSequence5>
    <ExpectedSequence6>GGGACAAAATCAG--</ExpectedSequence6>
    <ExpectedSequence7>-GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGAATCAAAATCAG</ExpectedSequence8>
    <ExpectedSequence9>GGG-----AAATC-G---</ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.044444</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithWeights>
  <!-- This node contains the Rna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequence>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <Stage1ExpectedSequence1>-AUUCCGGUUG-</Stage1ExpectedSequence1>
    <Stage1ExpectedSequence2>-AUCCUGCCGG-</Stage1ExpectedSequence2>
    <Stage1ExpectedSequence3>-AGGCCACUGC-</Stage1ExpectedSequence3>
    <Stage1ExpectedSequence4>UAUCGGGGUC--</Stage1ExpectedSequence4>
    <Stage1ExpectedSequence5>-CGACUAAGCC-</Stage1ExpectedSequence5>
    <Stage1ExpectedSequence6>-AUGCGAGUCA-</Stage1ExpectedSequence6>
    <Stage1ExpectedSequence7>--AGGGGCUCCC</Stage1ExpectedSequence7>
    <Stage1ExpectedScore>-1.242063,-1.242064</Stage1ExpectedScore>
    <Stage2ExpectedSequence1>AU--U-CCG-GUUG---</Stage2ExpectedSequence1>
    <Stage2ExpectedSequence2>AUCCUGCCG-G------</Stage2ExpectedSequence2>
    <Stage2ExpectedSequence3>AGGCCACU--GC-----</Stage2ExpectedSequence3>
    <Stage2ExpectedSequence4>----UAUCGGGG-UC--</Stage2ExpectedSequence4>
    <Stage2ExpectedSequence5>---CGACUAAGCC----</Stage2ExpectedSequence5>
    <Stage2ExpectedSequence6>AU---G-CGAGUCA---</Stage2ExpectedSequence6>
    <Stage2ExpectedSequence7>-----A--GGGGCUCCC</Stage2ExpectedSequence7>
    <Stage2ExpectedScore>-1.042017</Stage2ExpectedScore>
    <Stage3ExpectedSequence1>-AUUCCGGUUG-</Stage3ExpectedSequence1>
    <Stage3ExpectedSequence2>-AUCCUGCCGG-</Stage3ExpectedSequence2>
    <Stage3ExpectedSequence3>-AGGCCACUGC-</Stage3ExpectedSequence3>
    <Stage3ExpectedSequence4>UAUCGGGGUC--</Stage3ExpectedSequence4>
    <Stage3ExpectedSequence5>-CGACUAAGCC-</Stage3ExpectedSequence5>
    <Stage3ExpectedSequence6>-AUGCGAGUCA-</Stage3ExpectedSequence6>
    <Stage3ExpectedSequence7>--AGGGGCUCCC</Stage3ExpectedSequence7>
    <Stage3ExpectedScore>-1.242063,-1.128571</Stage3ExpectedScore>
    <ExpectedSequence1>AU--U-CCG-GUUG---</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCG-G------</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACU--GC-----</ExpectedSequence3>
    <ExpectedSequence4>----UAUCGGGG-UC--</ExpectedSequence4>
    <ExpectedSequence5>---CGACUAAGCC----</ExpectedSequence5>
    <ExpectedSequence6>AU---G-CGAGUCA---</ExpectedSequence6>
    <ExpectedSequence7>-----A--GGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8>AU--U-CCG-GUUG---------</ExpectedSequence8>
    <ExpectedSequence9>AUCCUGCCG-G-----------</ExpectedSequence9>
    <ExpectedSequence10>AUCCUGCCG-G-----------</ExpectedSequence10>
    <ExpectedScore>-1.042017,-0.960663</ExpectedScore>
  </MultipleNWProfilerRnaSequence>
  <MultipleNWProfilerRnaSequenceWithInnerProduct>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>-AUUCCGGUUG-</ExpectedSequence1>
    <ExpectedSequence2>-AUCCUGCCGG-</ExpectedSequence2>
    <ExpectedSequence3>-AGGCCACUGC-</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC--</ExpectedSequence4>
    <ExpectedSequence5>-CGACUAAGCC-</ExpectedSequence5>
    <ExpectedSequence6>-AUGCGAGUCA-</ExpectedSequence6>
    <ExpectedSequence7>--AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.242063,-1.128571</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithInnerProduct>
  <MultipleNWProfilerRnaSequenceWithInnerProductFast>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCGG</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACUGC</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC</ExpectedSequence4>
    <ExpectedSequence5>CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>AUGCGAGUCA</ExpectedSequence6>
    <ExpectedSequence7>AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.128571</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithInnerProductFast>
  <!-- This node contains the Rna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithCovariance>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>-----AU--UCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>-----AUCCUGCCGG--</ExpectedSequence2>
    <ExpectedSequence3>AGGCCAC--UGC-----</ExpectedSequence3>
    <ExpectedSequence4>-------UAUCGGGGUC</ExpectedSequence4>
    <ExpectedSequence5>CGACUA-----A--GCC</ExpectedSequence5>
    <ExpectedSequence6>AUGCGAG--UCA-----</ExpectedSequence6>
    <ExpectedSequence7>AGGGGC---UCCC----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.092437,-1.308123,-0.857143</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithCovariance>
  <!-- This node contains the Protein sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequence>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <Stage1ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAV-DELLLP-------ESVVNWLDEDSD---DAP--RM-PATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Stage1ExpectedSequence1>
    <Stage1ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATW--LDECPNEAPQMPE--P---SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPL----DGEYFTLQIRGFKRYEMFRELNDALELKDALD-GREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Stage1ExpectedSequence2>
    <Stage1ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP---------------D---PLQTV-TCR-LDN-LSEFPDYPLAADMSVLQEGLMGNAVP---TVT---SCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRG----LKP-SGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</Stage1ExpectedSequence3>
    <Stage1ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPD-DIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQA-GKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Stage1ExpectedSequence4>
    <Stage1ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPE-DVANW--LDERPDEAPQMPE--P---PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQA-GKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Stage1ExpectedSequence5>
    <Stage1ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PSPHCMDDLLLPQ-DVEEFF---EGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDG-DGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPL----DGEYFTLKIRGRKRFEMFRELNEALELKDAHA-TEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Stage1ExpectedSequence6>
    <Stage1ExpectedSequence7>----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</Stage1ExpectedSequence7>
    <Stage1ExpectedScore>4.173579,4.172398,4.172397</Stage1ExpectedScore>
    <Stage2ExpectedSequence1>M---QEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL-PESVVNWLDEDS--DDAPRMPA--T---SAPTAPGPA---P--SWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQSG-KEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Stage2ExpectedSequence1>
    <Stage2ExpectedSequence2>P---------------LSQETFSDLWNLLPENNLLSSELSAPVDDL-LPYTDVATWLDEC--PNEAPQMPE--P---SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPL----DGEYFTLQIRGFKRYEMFRELNDALELKDALDG-REPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Stage2ExpectedSequence2>
    <Stage2ExpectedSequence3>M----EPSSETGMDPPLSQETFEDLWSLLP--------------D----PLQTVTCRL-DNLS-EFPDYPLAADMSVLQEGLMGNAVP---TVT---SCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRG----LKP-SGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</Stage2ExpectedSequence3>
    <Stage2ExpectedSequence4>M---EEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQAG-KEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Stage2ExpectedSequence4>
    <Stage2ExpectedSequence5>M---EESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERP--DEAPQMPE--P---PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQAG-KEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Stage2ExpectedSequence5>
    <Stage2ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PSPHCMDDLLLPQDVEEFF-E--GPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPL----DGEYFTLKIRGRKRFEMFRELNEALELKDAHATE-ESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Stage2ExpectedSequence6>
    <Stage2ExpectedSequence7>F---------------------------------------------------------------------------------------------------------------RLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQSG-KEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</Stage2ExpectedSequence7>
    <Stage2ExpectedScore>1690.238</Stage2ExpectedScore>
    <Stage3ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAV-DELLLPESVV-NW--LDEDSDDAPRMP----------ATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Stage3ExpectedSequence1>
    <Stage3ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATW--LDECPNEAPQMPE--P---SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPL----DGEYFTLQIRGFKRYEMFRELNDALELKDALD-GREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Stage3ExpectedSequence2>
    <Stage3ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP---------------D---PLQTV-TCR-LDN-LSEFPDYPLAADMSVLQEGLMGNAVP---TVT---SCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRG----LKP-SGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</Stage3ExpectedSequence3>
    <Stage3ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPD-DIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQA-GKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Stage3ExpectedSequence4>
    <Stage3ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPE-DVANW--LDERPDEAPQMPE--P---PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQA-GKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Stage3ExpectedSequence5>
    <Stage3ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PSPHCMDDLLLPQ-DVEEFF---EGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDG-DGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPL----DGEYFTLKIRGRKRFEMFRELNEALELKDAHA-TEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Stage3ExpectedSequence6>
    <Stage3ExpectedSequence7>----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</Stage3ExpectedSequence7>
    <Stage3ExpectedScore>4.204419,4.203237,4.203238</Stage3ExpectedScore>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL--PESVVNWL--DEDSDDAPRM----P-------ATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATWL--DECPNEAPQMPE--P----SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQ-PKKKPL---DGEYFTLQIRGFKRYEMFRELNDALELKDALDGRE-PGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP---------------------DPLQTVTCRL---DNLSEFPD-YPLAADMSVLQEGLMGNAVPTV---TSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKK-RG---LKPSG-KRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVA-PAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQ-PKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P----PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPP-QKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPP-QKKKPL---DGEYFTLKIRGRKRFEMFRELNEALELKDAHATEE-SGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>-----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>4.212518,4.203238,4.236917</ExpectedScore>
    <ExpectedScoreWithInnerProduct>1692.714</ExpectedScoreWithInnerProduct>
  </MultipleNWProfilerProteinSequence>
  <!-- This node contains the Protein sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinEuclieanDistanceSequence>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL--PESVVNWL--DEDSDDAPRM----P-------ATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATWL--DECPNEAPQMPE--P----SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQ-PKKKPL---DGEYFTLQIRGFKRYEMFRELNDALELKDALDGRE-PGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP---------------------DPLQTVTCRL---DNLSEFPD-YPLAADMSVLQEGLMGNAVPTV---TSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKK-RG---LKPSG-KRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVA-PAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQ-PKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P----PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPP-QKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPP-QKKKPL---DGEYFTLKIRGRKRFEMFRELNEALELKDAHATEE-SGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>-----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>4.212518,4.203238,4.236917</ExpectedScore>
    <ExpectedScoreWithInnerProduct>1692.714</ExpectedScoreWithInnerProduct>
  </MultipleNWProfilerProteinEuclieanDistanceSequence>
  <!-- This node contains the Protein sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithProgresiveAligner>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <Stage1ExpectedSequence1>M---QEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL-P----ESVVNWL---DEDSDD---APRM---PATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQSG-KEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Stage1ExpectedSequence1>
    <Stage1ExpectedSequence2>P---------------LSQETFSDLWNLLPENNLLSSELSAPVDDLL--PYTDVATWL--DECPNEAPQMPE--P---SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPL----DGEYFTLQIRGFKRYEMFRELNDALELKDALDG-REPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Stage1ExpectedSequence2>
    <Stage1ExpectedSequence3>M----EPSSETGMDPPLSQETFEDLWSLLP---------------D---PLQTVTCRL--DNL-SEFPDYPLAAD-MSVLQEGLMGNAV-P-TVT---SCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRG----LKP-SGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</Stage1ExpectedSequence3>
    <Stage1ExpectedSequence4>M---EEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPD-DIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQAG-KEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Stage1ExpectedSequence4>
    <Stage1ExpectedSequence5>M---EESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPE-DVANWL--DERPDEAPQMPE--P---PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQAG-KEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Stage1ExpectedSequence5>
    <Stage1ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PSPHCMDDLLLPQ-D---VEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDG-DGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPL----DGEYFTLKIRGRKRFEMFRELNEALELKDAHAT-EESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Stage1ExpectedSequence6>
    <Stage1ExpectedSequence7>F----------------------------------------------------------------------------------------------------------------RLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQSG-KEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</Stage1ExpectedSequence7>
    <Stage1ExpectedScore>1680.429</Stage1ExpectedScore>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL--P---ESVVNWL---DED---SDDAPRMP----ATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDDLL--PYTDVATWL--DECPNEAPQMPE--P----SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQ-PKKKPL---DGEYFTLQIRGFKRYEMFRELNDALELKDALDGRE-PGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP--------------D----PLQTVTCRLDNL---SEFPDYPLAAD-MSVLQEGLMGN-AV-PTV----TSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKK-RG---LKPSG-KRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVA-PAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQ-PKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P----PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPP-QKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPP-QKKKPL---DGEYFTLKIRGRKRFEMFRELNEALELKDAHATEE-SGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>-----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1700.619</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithProgresiveAligner>
  <!-- This node contains the Protein sequence input and Complete hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithComplete>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL--PESVVNWL--DEDSDDAPRM----P-------ATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATWL--DECPNEAPQMPE--P----SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQ-PKKKPL---DGEYFTLQIRGFKRYEMFRELNDALELKDALDGRE-PGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP---------------------DPLQTVTCRL---DNLSEFPD-YPLAADMSVLQEGLMGNAVPTV---TSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKK-RG---LKPSG-KRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVA-PAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQ-PKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P----PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPP-QKKKPL---DGEYFTLQIRGRERFEMFRELNEALELKDAQAGKE-PGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPP-QKKKPL---DGEYFTLKIRGRKRFEMFRELNEALELKDAHATEE-SGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>-----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPP-QKKKPL---DGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKE-PGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>4.212518,4.178807</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithComplete>
  <!-- This node contains the Protein sequence input and Complete hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithCovarience>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLP-ESVVNWL--DEDSDDAPRM-------------PATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSP--PQKKKPL--DGEYFTLQIRGRERYEMFRNLNEALELKDA--QSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDDL-LPYTDVATWL--DECPNEAPQM---PEPSA-----PAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQ-PKKK-PL--DGEYFTLQIRGFKRYEMFRELNDALELKDALD--GREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>---M-EPSSETGMDPPLSQETFEDLWSLLP--D---PL--QTV-TCRL--DNL----------SEFPDY---PLAAD--MSVLQEGL-MGNA-VPT--VTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRG----LKP-SGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQ-KVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRM---PEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQ-PKKK-PL--DGEYFTLQIRGRERFEMFRELNEALELKDA--QAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWL--DERPDEAPQM---PEPP-----APAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSP--PQKKKPL--DGEYFTLQIRGRERFEMFRELNEALELKDA--QAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL-PSP-HCMDDLLLPQD--VEEFF-E-GPSEALRVSGAP-AAQD--PVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASP--PQKKKPL--DGEYFTLKIRGRKRFEMFRELNEALELKDA--HATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>------------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSP--PQKKKPL--DGEYFTLQIRGRERYEMFRNLNEALELKDA--QSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>4.185316</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithCovarience>
  <!-- This node contains the Protein sequence input and Complete hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithModifiedMuscle>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETF--SELWNLLPENNVLSSELCPAVDELLLPESVVN-WLDED-S-DDAPRMPATSAP------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETF--SDLWNLLPENNLLSSELSAPVDDL-LPYTDVATWLDE-C-PNEAP-------Q---MP----E-PSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETF-E-DLWSLLP-----DPL------QT-VTCRLDNL--SEF--PDYPLAADMSVLQEGLMGNAV----PTVTSCAPSTDDYAGKYGL-QLDFQQNGTAKS----------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETF--SDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPR----------MPEAAPRVAPAPAAPTPAAPAPAPSWPLS----------------------</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETF--SDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDE--RPDEAP-------Q---MP----E-PPAPAAPTPAAPAPATSWPLSSFVPSQK---------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETF--SGLWKLLPPEDIL-PSP-HCMDDLLLPQD-VEEFF---EGPSEALR----------VSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ-</ExpectedSequence6>
    <ExpectedSequence7>-----------------FRLGFLHSGTAKSVTW--TYSPLLNKLFCQLAKTCP-VQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRC-PHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.805889,0.801890</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithModifiedMuscle>
  <!-- This node contains the Protein sequence input and Complete hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithPearsonCorrelation>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETF--SELWNLLPENNVLSSELCPAVDELLLPESVVN-WLDED-S-DDAPRMPATSAP------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETF--SDLWNLLPENNLLSSELSAPVDDL-LPYTDVATWLDE--CPNEAP-------Q---MPE--PSA-P--AAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETF-E-DLWSLLP-----DPL------QT-VTCRLDNL--SEF--PDYPLAADMSVLQEGLMGNAV----PTVTSCAPSTDDYAGKYGL-QLDFQQNGTAKS----------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETF--SDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPR----------MPEAAPRVAPAPAAPTPAAPAPAPSWPLS----------------------</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETF--SDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDE-R-PDEAP-------Q---M----PE-PPAPAAPTPAAPAPATSWPLSSFVPSQK---------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETF--SGLWKLLPPEDIL-PSP-HCMDDLLLPQD-VEEFF---EGPSEALR----------VSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ-</ExpectedSequence6>
    <ExpectedSequence7>-----------------FRLGFLHSGTAKSVTW--TYSPLLNKLFCQLAKTCP-VQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRC-PHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.815703,0.812068</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithPearsonCorrelation>
  <!-- This node contains the Protein sequence input and Complete hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithInnerProduct>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAV-DELLLPESVV-NW--LDEDSDDAPRMP----------ATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATW--LDECPNEAPQMPE--P---SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPL----DGEYFTLQIRGFKRYEMFRELNDALELKDALD-GREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLP---------------D---PLQTV-TCR-LDN-LSEFPDYPLAADMSVLQEGLMGNAVP---TVT---SCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRG----LKP-SGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKG------KKLLVKDEQPDSE</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPD-DIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQA-GKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPE-DVANW--LDERPDEAPQMPE--P---PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPL----DGEYFTLQIRGRERFEMFRELNEALELKDAQA-GKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PSPHCMDDLLLPQ-DVEEFF---EGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDG-DGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPL----DGEYFTLKIRGRKRFEMFRELNEALELKDAHA-TEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>----------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPL----DGEYFTLQIRGRERYEMFRNLNEALELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>4.204419,4.203237,4.203238,4.218953</ExpectedScore>
    <ExpectedScoreWithInnerProduct>1692.714</ExpectedScoreWithInnerProduct>
  </MultipleNWProfilerProteinSequenceWithInnerProduct>
  <!-- This node contains the Protein sequence input and Complete hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithInnerProductFast>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDGDGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE</Sequence7>
    <ExpectedSequence1>----------------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKREGPDSD</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LLPYTDVATW------LDECPNEAPQMPEP-SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPPPRSTKRALPTNTSSSPQPKKKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHLKSKKRPSPSCHKKPMLKTEGPDSD</ExpectedSequence2>
    <ExpectedSequence3>------------------------------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSGKRELAHPPSSEPPLPKKRLVVDD-DEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQKVTIKCRKCRDEIKPKKGKKLLVKDEQPDSE-----</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVHVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALSNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANW------LDERPDEAPQMPEP-PAPAAPTPAAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELPTGSAKRALPTGTSSSPPQKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHLKSKKGQSPSRHKKLMFKREGPDSD</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PS-PHCMDDLLLPQDVEEFFE--GPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSDG-DGLAPPQHRIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELPPGSAKRALPTCTSASPPQKKKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYLKTKKGQSTSRHKKTMVKKVGPDSD</ExpectedSequence6>
    <ExpectedSequence7>---------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKKKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHLKAKKGQSTSRHKKLMFKRE-----</ExpectedSequence7>
    <ExpectedSequence8>AC</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>3.878014,3.878013</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithInnerProductFast>
  <!-- This node contains the Protein sequence input and WeightedInnerProductShifted hierarchical clustering method and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithWeightedInnerProductShifted>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>-------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL-P-ESVVNWL--DEDSDDAPRM---------------PATSAP----------------------------</ExpectedSequence1>
    <ExpectedSequence2>-------------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LL-PYTDVATWL--DECPNEAPQMPE--P---SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF--</ExpectedSequence2>
    <ExpectedSequence3>--------MEPSSETGMDPPLSQETFEDLWSLLP--DPLQTVTCR-LDNLSEFP--DYP--LAADMSVLQEGLMGNAVP---TVTSC-APSTDDYAGKYGLQLDFQQNGTAKS----------</ExpectedSequence3>
    <ExpectedSequence4>-------MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS---------------------</ExpectedSequence4>
    <ExpectedSequence5>-------MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P---PAPAAPTPAAPAPATSWPLSSFVPSQK--------------</ExpectedSequence5>
    <ExpectedSequence6>----MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSS---PP-------PPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAP-PQHLIRVEGNLRAKYLDDRNTFRHSVV--</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.222609</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithWeightedInnerProductShifted>
  <!-- This node contains the Protein sequence input and WeightedInnerProductShiftedfast profile score and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithWeightedInnerProductShiftedFast>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>-------------------------------------------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</ExpectedSequence1>
    <ExpectedSequence2>-------------------PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</ExpectedSequence2>
    <ExpectedSequence3>------------------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</ExpectedSequence3>
    <ExpectedSequence4>------------------MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</ExpectedSequence4>
    <ExpectedSequence5>------------------MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>--FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.722364</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithWeightedInnerProductShiftedFast>
  <!-- This node contains the Protein sequence input and WeightedMAFFT hierarchical clustering method 
  and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithWeightedMAFFT>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>--------------------------------------------------------MQEPQSELNIDPPLSQETFSELWN-LLPENNVL---SSELCPAVDELLL-P-ESVVNWL--DEDSDDAPRM----P-----ATSAP-----------------------------------</ExpectedSequence1>
    <ExpectedSequence2>--------------------------------------------------------------------PLSQETFSDLWN-LLPENNLL---SSELSAPVDD-LL-PYTDVATWL--DECPNEAPQMPE--P----SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF--</ExpectedSequence2>
    <ExpectedSequence3>---------------------------------------------------------MEPSSETGMDPPLSQETFEDLWS-LLP--DPL---QTVTCR-LDNLSEFP--DYP--LAADMSVLQEGLMGNAVPTV---TSCAPSTDDYA-G-K--YGLQLDFQQNGTAKS--------</ExpectedSequence3>
    <ExpectedSequence4>--------------------------------------------------------MEEPQSDPSVEPPLSQETFSDLWK-LLPENNVL---SPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVA-PAPAAPTPAAPAPAPSWPLS---------------------</ExpectedSequence4>
    <ExpectedSequence5>--------------------------------------------------------MEESQAELGVEPPLSQETFSDLWK-LLPENNLL---SSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P----PAPAAPTPAAPAPATSWPLSSFVPSQK--------------</ExpectedSequence5>
    <ExpectedSequence6>-----------------------------------------------------MTAMEESQSDISLELPLSQETFSGLWK-LLPPEDIL---PS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCP-HHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTF-RHSVV-----------------------------------------------------------------</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.772128,0.772397</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithWeightedMAFFT>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as JensenShannonDivergence and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithJensenShannonDivergence>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <Stage1ExpectedSequence1>GGGAAAAATCAGATT</Stage1ExpectedSequence1>
    <Stage1ExpectedSequence2>GGGAATCAAAATCAG</Stage1ExpectedSequence2>
    <Stage1ExpectedSequence3>GGGAATCAAAATCAG</Stage1ExpectedSequence3>
    <Stage1ExpectedSequence4>GGGAAATCG------</Stage1ExpectedSequence4>
    <Stage1ExpectedSequence5>GGGAATCAATCAG--</Stage1ExpectedSequence5>
    <Stage1ExpectedSequence6>--GGGACAAAATCAG</Stage1ExpectedSequence6>
    <Stage1ExpectedSequence7>-GGGAATCTTATCAG</Stage1ExpectedSequence7>
    <Stage1ExpectedScore>-0.006349186,-0.006349212</Stage1ExpectedScore>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>GGGAAATCG------</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAATCAG--</ExpectedSequence5>
    <ExpectedSequence6>--GGGACAAAATCAG</ExpectedSequence6>
    <ExpectedSequence7>-GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGACAAAATCAG</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.006349,-0.00634921,-0.006349212</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithJensenShannonDivergence>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithCoVariance>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAA--AAA-TCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGAA----A-TC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCA-A-TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCTTA-TCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGAATC-AA-TCAG---</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.968254</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithCoVariance>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithInnerProductFast>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>GGGAAATCG------</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAATCAG--</ExpectedSequence5>
    <ExpectedSequence6>--GGGACAAAATCAG</ExpectedSequence6>
    <ExpectedSequence7>-GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGAATC-AA-TCAG---</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.006349,-0.006349212</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithInnerProductFast>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithPearsonCorrelationDistanceMethod>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAA-A--ATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGAA-----ATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAAT-CA-ATCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGACA-AA-ATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAAT-CTTATCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGAAA-A--ATCAGATT</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.756614,1.828042</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithPearsonCorrelationDistanceMethod>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithSingleDistanceMethod>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATCG----</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCTTA-TCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGA---AAAATCAGATT</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.687831</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithSingleDistanceMethod>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeightedMAFFTDistanceMethod>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>GGGAAATCG------</ExpectedSequence4>
    <ExpectedSequence5>GGGAATC--AATCAG</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCTTA-TCAG</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.76455</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithWeightedMAFFTDistanceMethod>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithModifiedMuscleDistanceMethod>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAA-A--ATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGAA-----ATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAAT-CA-ATCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGACA-AA-ATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAAT-CTTATCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGAA-----ATC-G---</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.756614,1.828042</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithModifiedMuscleDistanceMethod>
  <!-- This node contains the one line protein sequence input and output for testing Muscle features 
  with Needleman Wunsch Profiler. -->
  <MultipleProteinOneLineSequence>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQE</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPEN</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQET</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQE</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQE</Sequence5>
    <Sequence6>MTAMEESQSDISLELPL</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWT</Sequence7>
    <Sequence8>FRLGFLHSGTAKSVTWT</Sequence8>
    <Sequence9>FRLGFLHSGTAKSVTWT</Sequence9>
    <Sequence10>FRLGFLHSGTAKSVTWT</Sequence10>
    <ExpectedSequence1>-----------MQEPQSELNIDPPLSQE------------</ExpectedSequence1>
    <ExpectedSequence2>-----------------------PLSQETFSDLWNLLPEN</ExpectedSequence2>
    <ExpectedSequence3>-----------M-EPSSETGMDPPLSQET-----------</ExpectedSequence3>
    <ExpectedSequence4>-----------MEEPQSDPSVEPPLSQE------------</ExpectedSequence4>
    <ExpectedSequence5>-----------MEESQAELGVEPPLSQE------------</ExpectedSequence5>
    <ExpectedSequence6>--------MTAMEESQSDISLELPL---------------</ExpectedSequence6>
    <ExpectedSequence7>FRLGFLHSGTAKSVTWT-----------------------</ExpectedSequence7>
    <ExpectedSequence8>FRLGFLHSGTAKSVTWT-----------------------</ExpectedSequence8>
    <ExpectedSequence9>FRLGFLHSGTAKSVTWT-----------------------</ExpectedSequence9>
    <ExpectedSequence10>FRLGFLHSGTAKSVTWT-----------------------</ExpectedSequence10>
        <ExpectedScore>0.117778</ExpectedScore>
  </MultipleProteinOneLineSequence>
  <!-- This node contains the one line dna sequence input and output for testing Muscle features 
  with Needleman Wunsch Profiler. -->
  <MultipleDnaOneLineSequence>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGAATCTTATCAG</Sequence6>
    <Sequence7>GGGACAAAATCAG</Sequence7>
    <Sequence8>GGGAAAAATCAGATT</Sequence8>
    <Sequence9>GGGAATCAAAATCAG</Sequence9>
    <Sequence10>GGGACAAAATCAG</Sequence10>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGAATCTT-ATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGA--CAAAATCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGA---AAAATCAGATT</ExpectedSequence8>
    <ExpectedSequence9>GGGAATCAAAATCAG---</ExpectedSequence9>
    <ExpectedSequence10>GGGA--CAAAATCAG---</ExpectedSequence10>
    <ExpectedSequence11>GGGAATC-TTATCAG---</ExpectedSequence11>
    <ExpectedScore>2.353086,2.361729,2.361728</ExpectedScore>
  </MultipleDnaOneLineSequence>
  <!-- This node contains the one line Rna sequence input and output for testing Muscle features 
  with Needleman Wunsch Profiler. -->
  <MultipleRnaOneLineSequence>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <Sequence8>CGACUAAGCC</Sequence8>
    <Sequence9>AUGCGAGUCA</Sequence9>
    <Sequence10>UAUCGGGGUC</Sequence10>
    <ExpectedSequence1>-----AU--U-CCGGUUG--</ExpectedSequence1>
    <ExpectedSequence2>-----AUCCUGCCGG-----</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACU--GC--------</ExpectedSequence3>
    <ExpectedSequence4>-------UAU-CGGGGUC--</ExpectedSequence4>
    <ExpectedSequence5>---CGACUAAGCC-------</ExpectedSequence5>
    <ExpectedSequence6>--------AUGCGAGUCA--</ExpectedSequence6>
    <ExpectedSequence7>--------A--GGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8>---CGACUAAGCC-------</ExpectedSequence8>
    <ExpectedSequence9>--------AUGCGAGUCA--</ExpectedSequence9>
    <ExpectedSequence10>-------UAUCGGGG-UC--</ExpectedSequence10>
    <ExpectedScore>-0.653333</ExpectedScore>
  </MultipleRnaOneLineSequence>
  <!-- This node contains the Dna sequence input and output for testing Muscle features with equal gap cost. -->
  <MultipleDnaSequenceWithEqualGapCost>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAA--AAA-TCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA---AA--TC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCT-TATCAG---</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>2.269841</ExpectedScore>
  </MultipleDnaSequenceWithEqualGapCost>
  <!-- This node contains the Rna sequence input and output for testing Muscle features with equal gap cost. -->
  <MultipleRnaSequenceWithEqualGapCost>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AU--U-CC-G-GUUG--</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCC-G-G-----</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACU---GC----</ExpectedSequence3>
    <ExpectedSequence4>----UAUCGGGG-UC--</ExpectedSequence4>
    <ExpectedSequence5>---CGACU-AAGCC---</ExpectedSequence5>
    <ExpectedSequence6>AU---GC--GAGUCA--</ExpectedSequence6>
    <ExpectedSequence7>-----A--GGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.781513,-0.818452,-0.742297</ExpectedScore>
  </MultipleRnaSequenceWithEqualGapCost>
  <!-- This node contains the Protein sequence input and output for testing Muscle features with equal gap cost. -->
  <MultipleProteinSequenceWithEqualGapCost>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPL-SQETFSEL-WNLL-PENNVLSSEL-C-PAVDELLL-P-ESVVNWL--DEDS-DDAPR-MPATSAP----------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>---------------PL-SQETFSDL-WNLL-PENNLLSSEL-SAP-VDD-LL-PYTDVATWL--DECP-NEAPQ-MP-E--P---SAP-A-AP-PP-ATPAPATSWPLSSFVPSQKTYPGNYGFRLGF------</ExpectedSequence2>
    <ExpectedSequence3>---M-EPSSETGMDPPL-SQETFEDL-WSLL-P-DP-LQT-VTCR--LDNLSEFP--DYP--LAADMSVLQEGL--M-GNAVPTVTS--CA--P-S---TDDYAGKYGLQ-L-DFQQNGTAKS------------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPL-SQETFSDL-WKLL-PENNVLSP-LPSQ-AMDDLMLSP-DDIEQWFTEDPGP-DEAPR-MP-EAAPRVAPAP-A-AP-TP-AAPAPAPSWPLS-------------------------</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPL-SQETFSDL-WKLL-PENNLLSSEL-S-PAVDDLLLSP-EDVANWL--DERP-DEAPQ-MP-E--P---PAP-A-AP-TP-AAPAPATSWPLSSFVPSQK------------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPL-SQETFSGL-WKLLPPED-IL----PSPHCMDDLLL-P-QDVEEFF---EGP-SEALR-VS--GAP-AAQDPVTETP-GP-VAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ----</ExpectedSequence6>
    <ExpectedSequence7>--------FRLGF---LHSG-TAKSVTWTY-SP---LLN-KLFCQ--LAK-T-CPVQ-L--WVSSPPPP-NTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8>---M-EPSSETGMDPPL-SQETFEDL-WSLL-P-DP-LQT-VTCR--LDNLSEFP--DY-P-LAADMSVLQEGL--M-GNAVPTVTS--CA--P-S---TDDYAGKYGLQ-L-DFQQNGTAKS------------</ExpectedSequence8>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.836332</ExpectedScore>
  </MultipleProteinSequenceWithEqualGapCost>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as JensenShannonDivergence and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithJensenShannonDivergence>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCGG</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACUGC</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC</ExpectedSequence4>
    <ExpectedSequence5>CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>AUGCGAGUCA</ExpectedSequence6>
    <ExpectedSequence7>AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.128571</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithJensenShannonDivergence>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as JensenShannonDivergence and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithJensenShannonDivergence>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL-PESVVNWLDEDSDDAPRMPATSAP---------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LLPYTDVATWLDECPNEAPQM-PEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF--</ExpectedSequence2>
    <ExpectedSequence3>----MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS--------------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAP-RMPEAAPRVAPAPAAPTPAAPAPAPSWPLS--------------</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQM-PEPPAPAAPTPAAPAPATSWPLSSFVPSQK--------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV--</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.673895,0.673894</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithJensenShannonDivergence>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithLogExponentialInnerProduct>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCT-TATCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGAATCT-TATCAG---</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.843915</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithLogExponentialInnerProduct>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProductFast and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithLogExponentialInnerProductFast>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>-GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>G-GGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>-GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>-------GGGAAATCG</ExpectedSequence4>
    <ExpectedSequence5>---GGGAATCAATCAG</ExpectedSequence5>
    <ExpectedSequence6>---GGGACAAAATCAG</ExpectedSequence6>
    <ExpectedSequence7>--GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGACAAAATCAG-----</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.288690</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithLogExponentialInnerProductFast>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithLogExponentialInnerProductShifted>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>--------------------------------------------------------GGGAAAAATCAGATT-----------------------</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG-------------------------------------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>---------------GGGAATCAAAATCAG----------------------------------------------------------------</ExpectedSequence3>
    <ExpectedSequence4>-----------------------------------------------------------------------GGGAAATCG--------------</ExpectedSequence4>
    <ExpectedSequence5>------------------------------GGGAATCAATCAG---------------------------------------------------</ExpectedSequence5>
    <ExpectedSequence6>-------------------------------------------GGGACAAAATCAG--------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>--------------------------------------------------------------------------------GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.963526,-0.9635257</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithLogExponentialInnerProductShifted>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithLogExponentialInnerProduct>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>---------------------------------AUUCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>-----AUCCU--GCCGG--------------------------</ExpectedSequence2>
    <ExpectedSequence3>AGGCCA--CU--GC-----------------------------</ExpectedSequence3>
    <ExpectedSequence4>--------------------UAUCGGGG-UC------------</ExpectedSequence4>
    <ExpectedSequence5>---CGA--CUAAGCC----------------------------</ExpectedSequence5>
    <ExpectedSequence6>-----AU-----GCGAGUCA-----------------------</ExpectedSequence6>
    <ExpectedSequence7>---------------------A--GGGGCUCCC----------</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.574751,-0.621118</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithLogExponentialInnerProduct>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProductFast and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithLogExponentialInnerProductFast>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>-AUUCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>-AUCCUGCCGG</ExpectedSequence2>
    <ExpectedSequence3>A-GGCCACUGC</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC-</ExpectedSequence4>
    <ExpectedSequence5>-CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>-AUGCGAGUCA</ExpectedSequence6>
    <ExpectedSequence7>-AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.597403,-1.337662,-1.493506</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithLogExponentialInnerProductFast>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithWeightedMAFFTMethod>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>-----AUUCCGGUUG---</ExpectedSequence1>
    <ExpectedSequence2>A--UCCUGCCGG------</ExpectedSequence2>
    <ExpectedSequence3>-----AGGCCACU--GC-</ExpectedSequence3>
    <ExpectedSequence4>----UAUCGGGGUC----</ExpectedSequence4>
    <ExpectedSequence5>--------CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>-----AUGCGAGUCA---</ExpectedSequence6>
    <ExpectedSequence7>AGGGGCUCCC--------</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.870370</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithWeightedMAFFTMethod>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithLogExponentialInnerProductShifted>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG-----------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>----------AUCCUGCCGG-------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>-----------------------------AGGCCACUGC------------------------------</ExpectedSequence3>
    <ExpectedSequence4>-------------------------------------------------UAUCGGGGUC----------</ExpectedSequence4>
    <ExpectedSequence5>---------------------------------------CGACUAAGCC--------------------</ExpectedSequence5>
    <ExpectedSequence6>--------------------AUGCGAGUCA---------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>-----------------------------------------------------------AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.487923,-0.514739</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithLogExponentialInnerProductShifted>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as WeightedEuclideanDistanceFast and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithWeightedEuclideanDistanceFast>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG------------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>----------AUCCUGCCGG--------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>------------------------------AGGCCACUGC------------------------------</ExpectedSequence3>
    <ExpectedSequence4>--------------------------------------------------UAUCGGGGUC----------</ExpectedSequence4>
    <ExpectedSequence5>----------------------------------------CGACUAAGCC--------------------</ExpectedSequence5>
    <ExpectedSequence6>--------------------AUGCGAGUCA----------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>------------------------------------------------------------AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.485714</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithWeightedEuclideanDistanceFast>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithModifiedMuscle>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>-----AUUCCGGUUG-</ExpectedSequence1>
    <ExpectedSequence2>------AUCCUGCCGG</ExpectedSequence2>
    <ExpectedSequence3>-----AGGCCACUGC-</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC------</ExpectedSequence4>
    <ExpectedSequence5>CGACUAAGCC------</ExpectedSequence5>
    <ExpectedSequence6>AUGCGAGUCA------</ExpectedSequence6>
    <ExpectedSequence7>AGGGGC-UCCC-----</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.16369</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithModifiedMuscle>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithLogExponentialInnerProduct>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCP-AVDELLL-P-ESVVNWL--DEDSDDAPRM----P-ATSAP-----------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>---------------PLSQETFSDLWNLLPENNLLSSELSA-PVDD-LL-PYTDVATWL--DECPNEAPQMPE--P---SAPAA--PPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---------------------------------------------------------------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>---M-EPSSETGMDPPLSQETFEDLWSLLP--D---PLQTVTCRLDN-L-------SEF---PDYPLAADMS-----VLQEGLM---GNAVP----T--VTSCAPSTDDYAGKYGLQLDFQQNGTAKS-------------------------------------------------------------------------------------------------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQ-AMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAA--PTPAAPAPAPSWPLS----------------------------------------------------------------------------------------------------------------------------</ExpectedSequence4>
    <ExpectedSequence5>---MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSP-AVDDLLLSP-EDVANWL--DERPDEAPQMPE--P---PAPAA--PTPAAPAPATSWPLSSFVPSQK---------------------------------------------------------------------------------------------------------------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDIL---PSPHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAP-AAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ-------------------------------------------------------------------------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>-------------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedScore>0.486561,0.486984</ExpectedScore>
    <ExpectedScoreWithInnerProductShifted>149.3333</ExpectedScoreWithInnerProductShifted>
    <ExpectedScoreWithWeightedInnerProduct>152.2857</ExpectedScoreWithWeightedInnerProduct>
    <ExpectedScoreWithWeightedInnerProductShifted>148.2381</ExpectedScoreWithWeightedInnerProductShifted>
  </MultipleNWProfilerProteinSequenceWithLogExponentialInnerProduct>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProductFast and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithLogExponentialInnerProductFast>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>--------------------------------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP-----------</ExpectedSequence1>
    <ExpectedSequence2>----PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---------------</ExpectedSequence2>
    <ExpectedSequence3>-----------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS-------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS---------------</ExpectedSequence4>
    <ExpectedSequence5>--ME-ESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK---------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>--FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.711735</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithLogExponentialInnerProductFast>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProductFast and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithLogExponentialInnerProductShiftedFast>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>--------------------------------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP-----------</ExpectedSequence1>
    <ExpectedSequence2>----PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---------------</ExpectedSequence2>
    <ExpectedSequence3>-----------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS-------</ExpectedSequence3>
    <ExpectedSequence4>---MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS---------------</ExpectedSequence4>
    <ExpectedSequence5>--ME-ESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK---------------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>--FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.711735</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithLogExponentialInnerProductShiftedFast>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as LogExponentialInnerProductShifted and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithLogExponentialInnerProductShifted>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS--------------------------------------------------------------------------------------------------------------</ExpectedSequence3>
    <ExpectedSequence4>-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence4>
    <ExpectedSequence5>---------------------------------------------------------------------------------------------MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence5>
    <ExpectedSequence6>-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.306735</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithLogExponentialInnerProductShifted>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as MultipleNWProfilerDnaSequenceWithWeightedInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeightedInnerProduct>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATC-TTATCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGACAAAATCAG-----</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.843915</ExpectedScore>
    <ExpectedScoreWithWeightedInnerProductShifted>1.931217</ExpectedScoreWithWeightedInnerProductShifted>
  </MultipleNWProfilerDnaSequenceWithWeightedInnerProduct>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as MultipleNWProfilerDnaSequenceWithWeightedInnerProduct and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeightedInnerProductShifted>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGA---AAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG---</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG---</ExpectedSequence3>
    <ExpectedSequence4>GGGA-----AATC-G---</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAA--TCAG---</ExpectedSequence5>
    <ExpectedSequence6>GGGA--CAAAATCAG---</ExpectedSequence6>
    <ExpectedSequence7>GGGAATCTTA-TCAG---</ExpectedSequence7>
    <ExpectedSequence8>GGGACAAAATCAG-----</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>1.830688</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithWeightedInnerProductShifted>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as MultipleNWProfilerDnaSequenceWithWeightedInnerProductShiftedFast and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeightedInnerProductShiftedFast>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>------GGGAAATCG</ExpectedSequence4>
    <ExpectedSequence5>--GGGAATCAATCAG</ExpectedSequence5>
    <ExpectedSequence6>--GGGACAAAATCAG</ExpectedSequence6>
    <ExpectedSequence7>-GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGACAAAATCAG-----</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.174603,-0.1746032</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithWeightedInnerProductShiftedFast>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithPearsonCorrelation>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>GGGAAATCG------</ExpectedSequence4>
    <ExpectedSequence5>--GGGAATCAATCAG</ExpectedSequence5>
    <ExpectedSequence6>--GGGACAAAATCAG</ExpectedSequence6>
    <ExpectedSequence7>-GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGACAAAATCAG-----</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.060317</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithPearsonCorrelation>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithPearsonCorrelation>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>---AUUCCGGUUG--------</ExpectedSequence1>
    <ExpectedSequence2>---AUCCUGCCGG--------</ExpectedSequence2>
    <ExpectedSequence3>----------AGGCCACUGC-</ExpectedSequence3>
    <ExpectedSequence4>----UAUCG-GGGUC------</ExpectedSequence4>
    <ExpectedSequence5>CGACUA---A--GCC------</ExpectedSequence5>
    <ExpectedSequence6>----------AUGCGAGUCA-</ExpectedSequence6>
    <ExpectedSequence7>----------AGGGGC-UCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.959184</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithPearsonCorrelation>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithPearsonCorrelationScore>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCGG</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACUGC</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC</ExpectedSequence4>
    <ExpectedSequence5>CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>AUGCGAGUCA</ExpectedSequence6>
    <ExpectedSequence7>AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.128571</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithPearsonCorrelationScore>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithSingleMethod>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>-----AUUCCGGUUG---</ExpectedSequence1>
    <ExpectedSequence2>A--UCCUGCCGG------</ExpectedSequence2>
    <ExpectedSequence3>-----AGGCCACU--GC-</ExpectedSequence3>
    <ExpectedSequence4>----UAUCGGGGUC----</ExpectedSequence4>
    <ExpectedSequence5>--------CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>-----AUGCGAGUCA---</ExpectedSequence6>
    <ExpectedSequence7>AGGGGCUCCC--------</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.8703704</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithSingleMethod>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithWeightedInnerProduct>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AU--U-CCG-GUUG---</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCG-G------</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACU--GC-----</ExpectedSequence3>
    <ExpectedSequence4>----UAUCGGGG-UC--</ExpectedSequence4>
    <ExpectedSequence5>---CGACUAAGCC----</ExpectedSequence5>
    <ExpectedSequence6>AU---G-CGAGUCA---</ExpectedSequence6>
    <ExpectedSequence7>-----A--GGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.042017,-0.960663</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithWeightedInnerProduct>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithWeightedInnerProductShifted>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AU--U-CCG-GUUG---</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCG-G------</ExpectedSequence2>
    <ExpectedSequence3>----AGGCCACU--GC-</ExpectedSequence3>
    <ExpectedSequence4>----UAUCGGGG-UC--</ExpectedSequence4>
    <ExpectedSequence5>-------CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>AU---G-CGAGUCA---</ExpectedSequence6>
    <ExpectedSequence7>-----A--GGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.106443,-1.106442,-1.134454</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithWeightedInnerProductShifted>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithPearsonCorrelationProfileScore>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>-------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLL-PESVVNWLDEDSDDAPRMPATSAP---------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>-------------------PLSQETFSDLWNLLPENNLLSSELSAPVDD-LLPYTDVATWLDECPNEAPQM-PEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF--</ExpectedSequence2>
    <ExpectedSequence3>--------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS--------------</ExpectedSequence3>
    <ExpectedSequence4>-------MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAP-RMPEAAPRVAPAPAAPTPAAPAPAPSWPLS--------------</ExpectedSequence4>
    <ExpectedSequence5>-------MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQM-PEPPAPAAPTPAAPAPATSWPLSSFVPSQK--------------</ExpectedSequence5>
    <ExpectedSequence6>----MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV------</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.7984401,0.8029556,0.802956</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithPearsonCorrelationProfileScore>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with UpdateDistanceMethodsTypes as SingleMethod and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithSingleMethod>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>--------------------------------------------------------MQEPQSELNIDPPLSQETFSELWN-LLPENNVL---SSELCPAVDELLL-P-ESVVNWL--DEDSDDAPRM----P-----ATSAP-----------------------------------</ExpectedSequence1>
    <ExpectedSequence2>--------------------------------------------------------------------PLSQETFSDLWN-LLPENNLL---SSELSAPVDD-LL-PYTDVATWL--DECPNEAPQMPE--P----SAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF--</ExpectedSequence2>
    <ExpectedSequence3>---------------------------------------------------------MEPSSETGMDPPLSQETFEDLWS-LLP--DPL---QTVTCR-LDNLSEFP--DYP--LAADMSVLQEGLMGNAVPTV---TSCAPSTDDYA-G-K--YGLQLDFQQNGTAKS--------</ExpectedSequence3>
    <ExpectedSequence4>--------------------------------------------------------MEEPQSDPSVEPPLSQETFSDLWK-LLPENNVL---SPLPSQAMDDLMLSP-DDIEQWFTEDPGPDEAPRMPEAAPRVA-PAPAAPTPAAPAPAPSWPLS---------------------</ExpectedSequence4>
    <ExpectedSequence5>--------------------------------------------------------MEESQAELGVEPPLSQETFSDLWK-LLPENNLL---SSELSPAVDDLLLSP-EDVANWL--DERPDEAPQMPE--P----PAPAAPTPAAPAPATSWPLSSFVPSQK--------------</ExpectedSequence5>
    <ExpectedSequence6>-----------------------------------------------------MTAMEESQSDISLELPLSQETFSGLWK-LLPPEDIL---PS--PHCMDDLLL-P-QDVEEFF---EGPSEALRVS-GAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</ExpectedSequence6>
    <ExpectedSequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCP-HHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTF-RHSVV-----------------------------------------------------------------</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>0.772128,0.772397</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithSingleMethod>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithSymmetrizedEntropy>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>GGGAAAAATCAGATT</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG</ExpectedSequence2>
    <ExpectedSequence3>GGGAATCAAAATCAG</ExpectedSequence3>
    <ExpectedSequence4>------GGGAAATCG</ExpectedSequence4>
    <ExpectedSequence5>GGGAATCAATCAG--</ExpectedSequence5>
    <ExpectedSequence6>GGGACAAAATCAG--</ExpectedSequence6>
    <ExpectedSequence7>-GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>GGGAAAAATCAGATT</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.5904762</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithSymmetrizedEntropy>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithSymmetrizedEntropy>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG</ExpectedSequence1>
    <ExpectedSequence2>AUCCUGCCGG</ExpectedSequence2>
    <ExpectedSequence3>AGGCCACUGC</ExpectedSequence3>
    <ExpectedSequence4>UAUCGGGGUC</ExpectedSequence4>
    <ExpectedSequence5>CGACUAAGCC</ExpectedSequence5>
    <ExpectedSequence6>AUGCGAGUCA</ExpectedSequence6>
    <ExpectedSequence7>AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-1.128571</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithSymmetrizedEntropy>
  <!-- This node contains the Rna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerRnaSequenceWithWeightedEuclideanDistance>
    <AlphabetName>Rna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>AUUCCGGUUG</Sequence1>
    <Sequence2>AUCCUGCCGG</Sequence2>
    <Sequence3>AGGCCACUGC</Sequence3>
    <Sequence4>UAUCGGGGUC</Sequence4>
    <Sequence5>CGACUAAGCC</Sequence5>
    <Sequence6>AUGCGAGUCA</Sequence6>
    <Sequence7>AGGGGCUCCC</Sequence7>
    <ExpectedSequence1>AUUCCGGUUG-----------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>----------AUCCUGCCGG-------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>------------------------------AGGCCACUGC-----------------------------</ExpectedSequence3>
    <ExpectedSequence4>-------------------------------------------------UAUCGGGGUC----------</ExpectedSequence4>
    <ExpectedSequence5>----------------------------------------CGACUAAGCC-------------------</ExpectedSequence5>
    <ExpectedSequence6>--------------------AUGCGAGUCA---------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>-----------------------------------------------------------AGGGGCUCCC</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.494134,-0.502801,-0.485714</ExpectedScore>
  </MultipleNWProfilerRnaSequenceWithWeightedEuclideanDistance>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as PearsonCorrelation and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithSymmetrizedEntropy>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>-----MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP----------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>-----------------PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF----------</ExpectedSequence2>
    <ExpectedSequence3>------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS--------------------</ExpectedSequence3>
    <ExpectedSequence4>----------------MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS----------</ExpectedSequence4>
    <ExpectedSequence5>----------------MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK----------</ExpectedSequence5>
    <ExpectedSequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ--------</ExpectedSequence6>
    <ExpectedSequence7>----------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.480159,-0.506202</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithSymmetrizedEntropy>
  <!-- This node contains the Protein sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as WeightedEuclideanDistance and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerProteinSequenceWithWeightedEuclideanDistance>
    <AlphabetName>Protein</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP</Sequence1>
    <Sequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF</Sequence2>
    <Sequence3>MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS</Sequence3>
    <Sequence4>MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS</Sequence4>
    <Sequence5>MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK</Sequence5>
    <Sequence6>MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ</Sequence6>
    <Sequence7>FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</Sequence7>
    <ExpectedSequence1>---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAVDELLLPESVVNWLDEDSDDAPRMPATSAP------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence1>
    <ExpectedSequence2>PLSQETFSDLWNLLPENNLLSSELSAPVDDLLPYTDVATWLDECPNEAPQMPEPSAPAAPPPATPAPATSWPLSSFVPSQKTYPGNYGFRLGF---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MEPSSETGMDPPLSQETFEDLWSLLPDPLQTVTCRLDNLSEFPDYPLAADMSVLQEGLMGNAVPTVTSCAPSTDDYAGKYGLQLDFQQNGTAKS--------------------------------------------------------------------------------------------------------------</ExpectedSequence3>
    <ExpectedSequence4>-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPRVAPAPAAPTPAAPAPAPSWPLS-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence4>
    <ExpectedSequence5>---------------------------------------------------------------------------------------------MEESQAELGVEPPLSQETFSDLWKLLPENNLLSSELSPAVDDLLLSPEDVANWLDERPDEAPQMPEPPAPAAPTPAAPAPATSWPLSSFVPSQK-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence5>
    <ExpectedSequence6>-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTAMEESQSDISLELPLSQETFSGLWKLLPPEDILPSPHCMDDLLLPQDVEEFFEGPSEALRVSGAPAAQDPVTETPGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVV</ExpectedSequence7>
    <ExpectedSequence8></ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.3067353</ExpectedScore>
  </MultipleNWProfilerProteinSequenceWithWeightedEuclideanDistance>
  <!-- This node contains the Dna sequence input and output for testing Muscle features 
  with ProfileScoreFunctionName as WeightedEuclideanDistance and Needleman Wunsch Profiler. -->
  <MultipleNWProfilerDnaSequenceWithWeightedEuclideanDistance>
    <AlphabetName>Dna</AlphabetName>
    <SequenceCount>7</SequenceCount>
    <Sequence1>GGGAAAAATCAGATT</Sequence1>
    <Sequence2>GGGAATCAAAATCAG</Sequence2>
    <Sequence3>GGGAATCAAAATCAG</Sequence3>
    <Sequence4>GGGAAATCG</Sequence4>
    <Sequence5>GGGAATCAATCAG</Sequence5>
    <Sequence6>GGGACAAAATCAG</Sequence6>
    <Sequence7>GGGAATCTTATCAG</Sequence7>
    <ExpectedSequence1>--------------------------------------------------------GGGAAAAATCAGATT-----------------------</ExpectedSequence1>
    <ExpectedSequence2>GGGAATCAAAATCAG-------------------------------------------------------------------------------</ExpectedSequence2>
    <ExpectedSequence3>---------------GGGAATCAAAATCAG----------------------------------------------------------------</ExpectedSequence3>
    <ExpectedSequence4>-----------------------------------------------------------------------GGGAAATCG--------------</ExpectedSequence4>
    <ExpectedSequence5>------------------------------GGGAATCAATCAG---------------------------------------------------</ExpectedSequence5>
    <ExpectedSequence6>-------------------------------------------GGGACAAAATCAG--------------------------------------</ExpectedSequence6>
    <ExpectedSequence7>--------------------------------------------------------------------------------GGGAATCTTATCAG</ExpectedSequence7>
    <ExpectedSequence8>---------------GGGAATCAAAATCAG----------------------------------------------------------------</ExpectedSequence8>
    <ExpectedSequence9></ExpectedSequence9>
    <ExpectedSequence10></ExpectedSequence10>
    <ExpectedScore>-0.963526,-0.9635257</ExpectedScore>
  </MultipleNWProfilerDnaSequenceWithWeightedEuclideanDistance>
  <!-- This node contains the Dna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrix>
    <Dimension>7</Dimension>
    <MinimumValue>0</MinimumValue>
    <NearestDistances>0.2175713,0,0,0.263278,0.1642985,0.1894576,0.2364316</NearestDistances>
  </KmerDistanceMatrix>
  <!-- This node contains the Rna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixRna>
    <Dimension>7</Dimension>
    <MinimumValue>0.3142697</MinimumValue>
    <NearestDistances>0.3142697,0.3142697,0.3142697,0.3849002,0.3142697,0.3513642,0.3142697</NearestDistances>
  </KmerDistanceMatrixRna>
  <!-- This node contains the Protein sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixProtein>
    <Dimension>7</Dimension>
    <MinimumValue>0.03489765</MinimumValue>
    <NearestDistances>0.03489765,0.03491003,0.06127676,0.03526035,0.03491003,0.04420932,0.03489765</NearestDistances>
  </KmerDistanceMatrixProtein>
  <!-- This node contains the Dna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixWithCoVariance>
    <Dimension>7</Dimension>
    <MinimumValue>0.00038881</MinimumValue>
    <NearestDistances>0.0004253522,0.0004497723,0.0004497723,0.000431545,0.0004741923,0.00038881,0.00038881</NearestDistances>
  </KmerDistanceMatrixWithCoVariance>
  <!-- This node contains the Rna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixRnaWithCoVariance>
    <Dimension>7</Dimension>
    <MinimumValue>7.137447E-05</MinimumValue>
    <NearestDistances>7.155006E-05,0.0002358958,0.0001262442,7.137447E-05,7.137447E-05,0.0001261564,0.0001261564,7.155005E-05,0.0002358958,0.0001262442,7.137447E-05,7.137447E-05,0.0001261563,0.0001261563</NearestDistances>
  </KmerDistanceMatrixRnaWithCoVariance>
  <!-- This node contains the Protein sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixProteinWithCoVariance>
    <Dimension>7</Dimension>
    <MinimumValue>3.226721E-06</MinimumValue>
    <NearestDistances>4.012807E-06,3.73019E-06,3.226721E-06,3.226721E-06,3.496431E-06,3.278491E-06,3.773431E-06</NearestDistances>
  </KmerDistanceMatrixProteinWithCoVariance>
  <!-- This node contains the Dna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixWithModifiedMuscle>
    <Dimension>7</Dimension>
    <MinimumValue>0.746788</MinimumValue>
    <NearestDistances>0.8451543,0.8451543,0.8451543,0.746788,0.8164966,0.792594,0.746788</NearestDistances>
  </KmerDistanceMatrixWithModifiedMuscle>
  <!-- This node contains the Rna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixRnaWithModifiedMuscle>
    <Dimension>7</Dimension>
    <MinimumValue>0.3333333</MinimumValue>
    <NearestDistances>0.4714045,0.6666667,0.3333333,0.3333333,0.4714045,0.5773503,0.5773503</NearestDistances>
  </KmerDistanceMatrixRnaWithModifiedMuscle>
  <!-- This node contains the Protein sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixProteinWithModifiedMuscle>
    <Dimension>7</Dimension>
    <MinimumValue>0.7410848</MinimumValue>
    <NearestDistances>0.7808941,0.7875491,0.7410848,0.7705977,0.7692549,0.7682742,0.7410848</NearestDistances>
  </KmerDistanceMatrixProteinWithModifiedMuscle>
  <!-- This node contains the Dna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixWithPearsonCorrelation>
    <Dimension>7</Dimension>
    <MinimumValue>0.7130966,0.7130967</MinimumValue>
    <NearestDistances>0.7558866,0.7741795,0.7741795,0.7130966,0.7896006,0.7156587,0.7130966,0.7558866,0.7741794,0.7741794,0.7130967,0.7896006,0.7156588,0.7130967,0.7558865,0.7741794,0.7741794,0.7130967,0.7896005,0.7156588,0.7130967</NearestDistances>
  </KmerDistanceMatrixWithPearsonCorrelation>
  <!-- This node contains the Rna sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixRnaWithPearsonCorrelation>
    <Dimension>7</Dimension>
    <MinimumValue>0.1119084</MinimumValue>
    <NearestDistances>0.1411297,0.4652951,0.1776875,0.1119084,0.1119084,0.1978012,0.1978012,0.1411296,0.4652951,0.1776875,0.1119084,0.1119084,0.1978012,0.1978012</NearestDistances>
  </KmerDistanceMatrixRnaWithPearsonCorrelation>
  <!-- This node contains the Protein sequence input and output for testing Muscle Kmer distance matrix -->
  <KmerDistanceMatrixProteinWithPearsonCorrelation>
    <Dimension>7</Dimension>
    <MinimumValue>0.5012493</MinimumValue>
    <NearestDistances>0.5888888,0.5738318,0.5012493,0.5012493,0.5336339,0.5283536,0.5114831,0.5888888,0.5738318,0.5012493,0.5012493,0.533634</NearestDistances>
  </KmerDistanceMatrixProteinWithPearsonCorrelation>
  <!-- This node contains the Dna sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClustering>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>2,4,5,0,3,6</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClustering>
  <HierarchicalClusteringRna>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11</NodesLeftChild>
    <NodesRightChild>6,4,3,5,7,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringRna>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClusteringProtein>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11</NodesLeftChild>
    <NodesRightChild>6,4,3,5,7,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProtein>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClusteringProteinWithComplete>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11</NodesLeftChild>
    <NodesRightChild>6,4,3,5,7,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProteinWithComplete>
  <!-- This node contains the Dna sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClusteringWithWeightedMAFFT>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>2,4,5,0,6,3</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringWithWeightedMAFFT>
  <!-- This node contains the Rna sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClusteringRnaWithWeightedMAFFT>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11,4,2,3,7,6,5,12</NodesLeftChild>
    <NodesRightChild>6,4,3,7,5,2,12,1,0,8,9,11,10,</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringRnaWithWeightedMAFFT>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClusteringProteinWithWeightedMAFFT>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11</NodesLeftChild>
    <NodesRightChild>6,4,3,7,5,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProteinWithWeightedMAFFT>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering -->
  <HierarchicalClusteringProteinStage2WithSingle>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,1,0,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProteinStage2WithSingle>
  <!-- This node contains the Dna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringStage2>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11,0,2,3</NodesLeftChild>
    <NodesRightChild>2,5,0,4,6,3,8,9,1</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringStage2>
  <!-- This node contains the Dna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringStage2WithComplete>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11,0,1,3,4,5,12,6,2</NodesLeftChild>
    <NodesRightChild>2,5,0,4,6,3,9</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringStage2WithComplete>
  <!-- This node contains the Rna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringRnaStage2>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,1,0,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringRnaStage2>
  <!-- This node contains the Rna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringRnaStage2WithComplete>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,0,1,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringRnaStage2WithComplete>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringProteinStage2>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,1,0,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProteinStage2>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringProteinStage2WithComplete>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,0,1,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProteinStage2WithComplete>
  <!-- This node contains the Protein sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringProteinStage2WithWeightedMAFFT>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,1,0,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringProteinStage2WithWeightedMAFFT>
  <!-- This node contains the Dna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringStage2WithWeightedMAFFT>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>2,5,4,0,6,3</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringStage2WithWeightedMAFFT>
  <!-- This node contains the Dna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringStage2WithSingle>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>2,5,4,6,0,3</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringStage2WithSingle>
  <!-- This node contains the Rna sequence input and output for testing Muscle Hierarchical Clustering for stage 2 -->
  <HierarchicalClusteringRnaStage2WithWeightedMAFFT>
    <NodesCount>13</NodesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>3,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>4,1,0,5,6,2</NodesRightChild>
    <EdgesCount>12</EdgesCount>
  </HierarchicalClusteringRnaStage2WithWeightedMAFFT>
  <!-- This node contains the Dna sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinaryTree>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>2,4,5,0,3,6</NodesRightChild>
    <SequenceIndicesWithCutTree>4,0,1,2,3,5,6</SequenceIndicesWithCutTree>
  </BinaryTree>
  <!-- This node contains the Dna sequence input and output for testing Muscle Binary Tree for stage 2 -->
  <BinaryTreeStage2>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11,0</NodesLeftChild>
    <NodesRightChild>2,5,0,4,6,3,8,10</NodesRightChild>
  </BinaryTreeStage2>
  <!-- This node contains the Dna sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinarySubTree>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>1,7,8,9,10,11</NodesLeftChild>
    <NodesRightChild>2,5,0,3,6</NodesRightChild>
    <SequenceIndicesWithCutTree>1,2,0,3,4,5,6</SequenceIndicesWithCutTree>
  </BinarySubTree>
  <!-- This node contains the Dna sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinarySubTreeNeedRealignment>
    <Nodes>2,7,8,9,10,11</Nodes>
  </BinarySubTreeNeedRealignment>
  <!-- This node contains the Dna sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinarySmallestTreeNode>
    <Nodes>7</Nodes>
    <NodesLeftChild>5</NodesLeftChild>
    <NodesRightChild>9</NodesRightChild>
  </BinarySmallestTreeNode>
  <!-- This node contains the Rna sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinarySubTreeRna>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,5,6,7,8,9,10,11,12,13,14</Nodes>
    <NodesLeftChild>0,2,7,9,3,11,8,10</NodesLeftChild>
    <NodesRightChild>1,5,8,6,10,4</NodesRightChild>
    <SequenceIndicesWithCutTree>1,2,0,3,4,5,6</SequenceIndicesWithCutTree>
  </BinarySubTreeRna>
  <!-- This node contains the Protein sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinarySubTreeProtein>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11</NodesLeftChild>
    <NodesRightChild>6,3,5,7,2</NodesRightChild>
    <SequenceIndicesWithCutTree>1,2,0,3,4,5,6</SequenceIndicesWithCutTree>
  </BinarySubTreeProtein>
  <!-- This node contains the Dna sequence input and output for testing Muscle Binary Tree for stage 1 -->
  <BinaryTreeWithProteinSequences>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,8,9,10,11,4</NodesLeftChild>
    <NodesRightChild>6,4,3,5,7,2</NodesRightChild>
  </BinaryTreeWithProteinSequences>
  <BinaryTreeWithRnaSequences>
    <RootId>12</RootId>
    <LeavesCount>7</LeavesCount>
    <Nodes>0,1,2,3,4,5,6,7,8,9,10,11,12</Nodes>
    <NodesLeftChild>0,1,2,3,4,5,6,7,8,9,10,11,12</NodesLeftChild>
    <NodesRightChild>0,1,2,3,4,5,6,7,8,9,10,11,12</NodesRightChild>
  </BinaryTreeWithRnaSequences>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner -->
  <ProfileAligner>
    <SubTreeEdges>15</SubTreeEdges>
    <SubTreeRoot>15</SubTreeRoot>
    <GenerateSequenceString>GGGA---AAAATCAG---,GGGA------AAAATCAG</GenerateSequenceString>
    <ColumnSize>5</ColumnSize>
    <RowSize>15</RowSize>
    <ProfileMatrix>15</ProfileMatrix>
  </ProfileAligner>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner -->
  <ProfileAlignerWithAlignment>
    <SubTreeEdges>15</SubTreeEdges>
    <SubTreeRoot>15</SubTreeRoot>
    <GenerateSequenceString>GGGAAAAATCAGATT</GenerateSequenceString>
    <ColumnSize>5</ColumnSize>
    <RowSize>18</RowSize>
    <ProfileMatrix>15</ProfileMatrix>
  </ProfileAlignerWithAlignment>
  <!-- This node contains the Rna sequence input and output for testing Muscle Profile Aligner -->
  <ProfileAlignerRna>
    <SubTreeEdges>-6,10,11,6,-10,-9</SubTreeEdges>
    <SubTreeRoot>12,-9</SubTreeRoot>
    <GenerateSequenceString>-------AUUCCGGUU</GenerateSequenceString>
    <ColumnSize>5</ColumnSize>
    <RowSize>10</RowSize>
    <ProfileMatrix>10,11</ProfileMatrix>
  </ProfileAlignerRna>
  <!-- This node contains the Rna sequence input and output for testing Muscle Profile Aligner -->
  <GenerateProfileAlignerRna>
    <SubTreeEdges>10,-9</SubTreeEdges>
    <SubTreeRoot>-9</SubTreeRoot>
    <GenerateSequenceString>AUUCCGGUUG---------</GenerateSequenceString>
    <ColumnSize>5</ColumnSize>
    <RowSize>12</RowSize>
    <ProfileMatrix>10</ProfileMatrix>
  </GenerateProfileAlignerRna>
  <!-- This node contains the Rna sequence input and output for testing Muscle Profile Aligner -->
  <ProfileAlignerRnaWithSimpleAlign>
    <ColumnSize>5</ColumnSize>
    <RowSize>17</RowSize>
  </ProfileAlignerRnaWithSimpleAlign>
  <!-- This node contains the Protein sequence input and output for testing Muscle Profile Aligner -->
  <ProfileAlignerProtein>
    <SubTreeEdges>-3,325,-4,32,-1,38</SubTreeEdges>
    <SubTreeRoot>403</SubTreeRoot>
    <GenerateSequenceString>------MQEPQSELNIDPPLSQETFSELWNLLPENNVLSSELCPAV-DELLLP-------ESVVNWLDEDSD---DAP--RM-PATSAPTAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPPPGSTKRALPPSTSSSPPQKK----KPL----DGEYFTLQIRGRERYEMFRNLNEAL-ELKDAQS-GKEPGGSRAHSSHLKAKKGQSTSRHKKLMF</GenerateSequenceString>
    <ColumnSize>21</ColumnSize>
    <RowSize>403</RowSize>
    <ProfileMatrix>374</ProfileMatrix>
  </ProfileAlignerProtein>
  <!-- This node contains the Protein sequence input and output for testing Muscle Profile Aligner -->
  <ProfileAlignerProteinWithSimpleAlign>
    <ColumnSize>21</ColumnSize>
    <RowSize>402</RowSize>
  </ProfileAlignerProteinWithSimpleAlign>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner with Profile Function Score -->
  <ProfileAlignerWithWeightedInnerProductCached>
    <ColumnSize>5,4,3,6</ColumnSize>
    <RowSize>15,14,16,13</RowSize>
  </ProfileAlignerWithWeightedInnerProductCached>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner with Profile Function Score -->
  <ProfileAlignerWithLogExponentialInnerProductShiftedFast>
    <ColumnSize>5</ColumnSize>
    <RowSize>14</RowSize>
  </ProfileAlignerWithLogExponentialInnerProductShiftedFast>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner with Profile Function Score -->
  <ProfileAlignerWithLogExponentialInnerProductFast>
    <ColumnSize>5</ColumnSize>
    <RowSize>16,14,15,13,17</RowSize>
  </ProfileAlignerWithLogExponentialInnerProductFast>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner with Profile Function Score -->
  <ProfileAlignerWithWeightedEuclideanDistanceFast>
    <ColumnSize>5,4,6,7,3,26</ColumnSize>
    <RowSize>30,29,31,28,26,32,5</RowSize>
  </ProfileAlignerWithWeightedEuclideanDistanceFast>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner with Profile Function Score -->
  <ProfileAlignerWithWeightedInnerProduct>
    <ColumnSize>5,3,4,6,7</ColumnSize>
    <RowSize>13,12,11,10,14,15</RowSize>
  </ProfileAlignerWithWeightedInnerProduct>
  <!-- This node contains the Dna sequence input and output for testing Muscle Profile Aligner -->
  <MultipleProfileAligner>
    <ColumnSize>5</ColumnSize>
    <RowSize>13</RowSize>
    <ProfileMatrix>1,1,1,1,1,0.5,0.5,0.5,0.5,0.5,0.5,1,1,1,1,1,1,1,0.5,0.5,0.5,0.5,0.5,0.5</ProfileMatrix>
  </MultipleProfileAligner>
  <!-- This node contains the Protein sequence input and output for testing Muscle Profile Aligner -->
  <MultipleProfileAlignerProtein>
    <ColumnSize>21</ColumnSize>
    <RowSize>374</RowSize>
    <ProfileMatrix>0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5,0.5</ProfileMatrix>
  </MultipleProfileAlignerProtein>
  <!-- This node contains the Rna sequence input and output for testing Muscle Profile Aligner -->
  <MultipleProfileAlignerRna>
    <ColumnSize>5</ColumnSize>
    <RowSize>10</RowSize>
    <ProfileMatrix></ProfileMatrix>
  </MultipleProfileAlignerRna>
  <!-- This node contains the Dna sequence input and output for testing Muscle kimura distance matrix -->
  <KimuraDistanceMatrix>
    <Dimension>7</Dimension>
    <MinimumValue>0.1890106</MinimumValue>
    <NearestDistances>0.4393666,0.1890106,0.1890106,0.7985077,0.3470215,0.3470215,0.4393666</NearestDistances>
  </KimuraDistanceMatrix>
  <!-- This node contains the Dna sequence input and output for testing Muscle kimura distance matrix -->
  <KimuraDistanceMatrixRna>
    <Dimension>7</Dimension>
    <MinimumValue>0.7985077</MinimumValue>
    <NearestDistances>1.053798,1.053798,1.053798,0.7985077,1.408767,0.7985077,1.053798,1.114742</NearestDistances>
  </KimuraDistanceMatrixRna>
  <!-- This node contains the Dna sequence input and output for testing Muscle kimura distance matrix -->
  <KimuraDistanceMatrixProtein>
    <Dimension>7</Dimension>
    <MinimumValue>0.1884778</MinimumValue>
    <NearestDistances>0.241357,0.2144703,0.7692195,0.1884778,0.1884778,0.3128599,0.3872204</NearestDistances>
  </KimuraDistanceMatrixProtein>
  <DnaWith12Sequences>
    <FilePath>TestUtils\DNA\12_raw.afa</FilePath>
    <RefFilePath>TestUtils\DNA\12.afa</RefFilePath>
    <QScore>0.7728716</QScore>
    <TCScore>0.7728716</TCScore>
    <ResiduesCount>6</ResiduesCount>
    <ExpectedScore>0.2621934,0.2621933</ExpectedScore>
    <PairWiseScore>-0.2507937</PairWiseScore>
  </DnaWith12Sequences>
  <RnaWith12Sequences>
    <FilePath>TestUtils\RNA\15_raw.fa</FilePath>
    <RefFilePath>TestUtils\RNA\15.fa</RefFilePath>
    <QScore>0.1403454</QScore>
    <TCScore>0.1403454</TCScore>
    <ResiduesCount>29</ResiduesCount>
    <ExpectedScore>-0.745658</ExpectedScore>
    <PairWiseScore>-0.9926471,-1.463235</PairWiseScore>
  </RnaWith12Sequences>
  <ProteinWith12Sequences>
    <FilePath>TestUtils\Protein\12_raw.afa</FilePath>
    <RefFilePath>TestUtils\Protein\12.afa</RefFilePath>
    <QScore>0.7264827,0.7266758</QScore>
    <TCScore>0.7264827,0.7266758</TCScore>
    <ResiduesCount>118</ResiduesCount>
    <ExpectedScore>2.787743,2.784988</ExpectedScore>
    <PairWiseScore>2.978233</PairWiseScore>
  </ProteinWith12Sequences>
  <DnaFunctions>
    <Correlation>1</Correlation>
    <MaxIndex>2</MaxIndex>
    <JensenShanonDivergence>0</JensenShanonDivergence>
    <KullbackLeiblerDistance>0</KullbackLeiblerDistance>
  </DnaFunctions>
  <RnaFunctions>
    <Correlation>0.3952847,0.3952846,0.08574928</Correlation>
    <MaxIndex>0</MaxIndex>
    <JensenShanonDivergence>0.3958156,0.5487949</JensenShanonDivergence>
    <KullbackLeiblerDistance>1.321928</KullbackLeiblerDistance>
  </RnaFunctions>
  <ProteinFunctions>
    <Correlation>0.8353495,0.8353496</Correlation>
    <MaxIndex>12</MaxIndex>
    <JensenShanonDivergence>0.2934357</JensenShanonDivergence>
    <KullbackLeiblerDistance>-0.1132833</KullbackLeiblerDistance>
  </ProteinFunctions>
  <PairWiseMatrixDna>
    <Dimension>7</Dimension>
    <MinimumValue>-2.933333</MinimumValue>
    <NearestDistances>-1.8,-0.9333333,-0.9333333,-2.933333,-2.933333,-2.933333,-0.6666667</NearestDistances>
    <MatrixName></MatrixName>
  </PairWiseMatrixDna>
  <PairWiseMatrixRna>
    <Dimension>7</Dimension>
    <MinimumValue>-2.352941</MinimumValue>
    <NearestDistances>-2.352941,-1.294118,-1.647059,-2.058824,-2.176471,-2.058824,-2.352941</NearestDistances>
  </PairWiseMatrixRna>
  <PairWiseMatrixProtein>
    <Dimension>7</Dimension>
    <MinimumValue>2.399504</MinimumValue>
    <NearestDistances>3.052109,3.052109,2.399504,3.079404,3.116625,2.942928,2.399504</NearestDistances>
  </PairWiseMatrixProtein>
</AutomationTest>